From 6894c76aaf66604508de408744b8b13fd13da54c Mon Sep 17 00:00:00 2001
From: DIANE <abderrahim.diane@cefe.cnrs.fr>
Date: Mon, 15 Apr 2024 11:49:00 +0200
Subject: [PATCH] score plot(group samples based on metadata or on clustering
results
---
pages/1-samples_selection.py | 39 +++++++++++++++++++++++++-----------
1 file changed, 27 insertions(+), 12 deletions(-)
diff --git a/pages/1-samples_selection.py b/pages/1-samples_selection.py
index 121d467..314bf96 100644
--- a/pages/1-samples_selection.py
+++ b/pages/1-samples_selection.py
@@ -121,26 +121,41 @@ if not t.empty:
with scores:
st.write('Scores plot')
# scores plot with clustering
- if list(labels):
+ if list(labels) and meta_data.empty:
fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3, color = labels)
- else:
+
# scores plot with metadata
- if not meta_data.empty:
- filter = meta_data.columns[1:]
- col = st.selectbox('filter', options= filter)
- if col == 0:
- fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3)
- else:
- fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3, color = list(map(str.lower,meta_data[col])) )
+ elif len(list(labels)) == 0 and not meta_data.empty:
+ filter = meta_data.columns[1:]
+ col = st.selectbox('Group by:', options= filter)
+ if col == 0:
+ fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3)
+ else:
+ fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3, color = list(map(str.lower,meta_data[col])) )
+
+ # color with scores and metadata
+ elif len(list(labels)) > 0 and not meta_data.empty:
+ if clus_method in cluster_methods[1:]:
+ filter = ['None', clus_method]
+ filter.extend(meta_data.columns[1:])
+ else:
+ filter = meta_data.columns[1:].insert(0,'None')
+
+ col = st.selectbox('Group by:', options= filter)
+ if col == "None":
+ fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3)
+ elif col == clus_method:
+ fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3, color = labels)
else:
- # scores plot with neither metadata nor clustering
- fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3)
+ fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3, color = list(map(str.lower,meta_data[col])))
+
+ else:
+ fig = px.scatter_3d(t, x=axis1, y=axis2, z = axis3)
fig.update_traces(marker=dict(size=4))
st.plotly_chart(fig)
-
if not spectra.empty:
if dim_red_method == dim_red_methods[1]:
with loadings:
--
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